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ASM346087v1

  • Anomalous assembly.
Organism name:
Ruminococcus sp. AF27-12AA (firmicutes)
Taxonomy check:
Inconclusive
Infraspecific name:
Strain: AF27-12AA
BioSample:
SAMN09734525
BioProject:
PRJNA482748
Submitter:
BGI
Date:
2018/08/31
Assembly type:
na
Assembly level:
Scaffold
Genome representation:
full
Assembly anomaly:
contaminated
Excluded from RefSeq:
  • contaminated
  • many frameshifted proteins
GenBank assembly accession:
GCA_003460875.1 (latest)
RefSeq assembly accession:
GCF_003460875.1 (suppressed)
RefSeq assembly and GenBank assembly identical:
yes
WGS Project:
QTWA01
Assembly method:
SPAdes v. 3.1.0
Expected final version:
yes
Genome coverage:
100x
Sequencing technology:
IonProton

IDs: 1920821 [UID] 7290688 [GenBank] 7349978 [RefSeq]

See Genome Information for Ruminococcus sp. AF27-12AA

History (Show revision history)

Comment

Annotation was added by the NCBI Prokaryotic Genome Annotation Pipeline (released 2013). Information about the Pipeline can be found here: https://0-www-ncbi-nlm-nih-gov.brum.beds.ac.uk/genome/annotation_prok/

Genome-Annotation-Data

##Genome-Annotation-Data-START##
Annotation Provider::NCBI
Annotation Date::08/09/2018 11:48:46
Annotation Pipeline::NCBI Prokaryotic Genome Annotation Pipeline
Annotation Method::Best-placed reference protein set; GeneMarkS+
Annotation Software revision::4.6
Features Annotated::Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
Genes (total)::3,130
CDS (total)::3,074
Genes (coding)::2,690
CDS (coding)::2,690
Genes (RNA)::56
rRNAs::1, 2, 5 (5S, 16S, 23S)
complete rRNAs::1, 1 (5S, 16S)
partial rRNAs::1, 5 (16S, 23S)
tRNAs::44
ncRNAs::4
Pseudo Genes (total)::384
Pseudo Genes (ambiguous residues)::0 of 384
Pseudo Genes (frameshifted)::271 of 384
Pseudo Genes (incomplete)::113 of 384
Pseudo Genes (internal stop)::31 of 384
Pseudo Genes (multiple problems)::29 of 384
##Genome-Annotation-Data-END##

Global statistics

Total sequence length3,256,766
Total ungapped length3,256,407
Gaps between scaffolds0
Number of scaffolds90
Scaffold N5086,101
Scaffold L5013
Number of contigs91
Contig N5086,101
Contig L5013
Total number of chromosomes and plasmids0
Number of component sequences (WGS or clone)90

Supplemental Content

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Global assembly definition

Download the full sequence report
Click on the table row to see sequence details in the table to the right
Assembly Unit Name
Primary Assembly
The primary assembly unit does not have any assembled chromosomes or linkage groups.
Please download the full sequence report for information on the scaffolds.

Assembly statistics

MoleculeTotal
Length
Scaffold
Count
Ungapped
Length
Scaffold
N50
Spanned
Gaps
Unspanned
Gaps
unplaced3,256,766903,256,40786,10110

Assembly QA

Taxonomy Check Data

Declared organism

Organism nameSpecies name
Ruminococcus sp. AF27-12AARuminococcus sp. AF27-12AA

Best-matching type-strain assembly for declared species

AssemblyOrganism nameType category
no-typeno-type

Best-matching type-strain assembly

AssemblySpecies nameType category
GCA_001312505.1Mediterraneibacter faecissuspected-type

Average Nucleotide Identity (ANI) data

ANIQuery coverageSubject coverage
Declared typenanana
Best-match type96.6368.0367.97

ANI result

Taxonomy check statusBest match statusComment
Inconclusivemismatchcoverage is less than 80%